SMTL ID : 7c3d.1

Crystal structure of AofleA from Arthrobotrys oligospora in complex with D-arabinose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-dimer

Ligands

2 x SEJ: beta-D-arabinopyranose(Non-covalent)

SEJ.1: 10 residues within 4Å: Chain A: R.98, E.110, C.112, Y.123, G.125, A.126, L.127, L.150, F.166, W.172 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.98, A:E.110, A:A.126, A:L.127 Salt bridges: A:R.98 SEJ.7: 10 residues within 4Å: Chain B: R.98, E.110, C.112, Y.123, G.125, A.126, L.127, L.150, F.166, W.172 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.98, B:E.110, B:Y.123, B:A.126, B:L.127 Salt bridges: B:R.98

1 x 64K: alpha-D-arabinopyranose(Non-covalent)

64K.2: 8 residues within 4Å: Chain A: R.204, E.216, R.225, G.227, Q.228, F.229, N.269, W.273 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:E.216, A:E.216, A:R.225, A:Q.228, A:Q.228, A:F.229 Water bridges: A:R.204, A:R.204, A:R.225 Salt bridges: A:R.204

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: N.49, W.65, R.304, E.316, I.318, R.320 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.49, A:R.304, A:R.304, A:R.320 Water bridges: A:W.69, A:E.316 GOL.4: 8 residues within 4Å: Chain A: Q.228, F.229, V.230, I.231, S.267, W.273, K.274, P.276 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.228, A:V.230, A:V.230, A:S.267, A:K.274 GOL.5: 5 residues within 4Å: Chain A: R.151, Y.153, E.163, W.219, W.224 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.151, A:Y.153, A:W.224 GOL.6: 7 residues within 4Å: Chain A: H.15, E.25, D.26, I.27, Q.310, L.311, V.313 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:H.15, A:I.27, A:I.27, A:L.311, A:I.328 GOL.8: 6 residues within 4Å: Chain B: N.49, W.65, R.304, E.316, I.318, R.320 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:N.49, B:R.304, B:Y.306, B:R.320 Water bridges: B:W.69, B:E.316 GOL.9: 8 residues within 4Å: Chain B: Q.228, F.229, V.230, I.231, S.267, W.273, K.274, P.276 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.228, B:V.230, B:V.230, B:S.267, B:K.274 GOL.10: 5 residues within 4Å: Chain B: F.145, R.151, E.163, W.219, W.224 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.151, B:E.163, B:W.224 Water bridges: B:A.176 GOL.11: 8 residues within 4Å: Chain B: R.204, E.216, V.218, G.227, Q.228, F.229, N.269, W.273 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.228, B:F.229, B:W.273 GOL.12: 9 residues within 4Å: Chain B: S.40, Y.41, V.191, A.242, T.243, V.244, A.291, T.292 Ligands: GOL.13 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:A.242, B:T.243, B:V.244, B:V.244, B:T.292, B:T.292 Water bridges: B:S.293 GOL.13: 7 residues within 4Å: Chain B: Y.41, A.88, L.89, A.142, F.190, V.191 Ligands: GOL.12 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:Y.41, B:F.190 Water bridges: B:S.40, B:Y.41, B:A.88, B:A.88, B:F.190, B:N.192 GOL.14: 6 residues within 4Å: Chain B: W.48, L.50, R.64, Q.94, W.113, T.115 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.64, B:R.64, B:T.115, B:T.115 GOL.15: 8 residues within 4Å: Chain B: S.13, H.15, E.25, D.26, I.27, Q.310, L.311, V.313 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:E.25, B:D.26, B:I.27, B:I.27, B:L.311 Water bridges: B:I.328

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, M. et al., Structural insights into the fungi-nematodes interaction mediated by fucose-specific lectin AofleA from Arthrobotrys oligospora. Int.J.Biol.Macromol. (2020)

Release Date

2020-07-29

Peptides

AofleA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

AofleA

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